X Tutup
Skip to content

Commit 536b338

Browse files
andreasprlicandreasprlic
committed
updating to lateset website template
1 parent 678f746 commit 536b338

File tree

689 files changed

+834461
-0
lines changed

Some content is hidden

Large Commits have some content hidden by default. Use the searchbox below for content that may be hidden.

689 files changed

+834461
-0
lines changed

‎CNAME‎

Lines changed: 1 addition & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1 @@
1+
biojava.org

‎LICENSE.txt‎

Lines changed: 63 additions & 0 deletions
Large diffs are not rendered by default.

‎_config.yml‎

Lines changed: 78 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,78 @@
1+
# Welcome to Jekyll!
2+
#
3+
4+
# Site settings
5+
title: BioJava
6+
description: |
7+
BioJava is an open-source project
8+
dedicated to providing a Java framework
9+
for processing biological data.
10+
owner: BioJava
11+
first_published: 2000
12+
email: biojava-l@biojava.org
13+
baseurl: "" # the subpath of your site, e.g. /blog
14+
url: "http://biojava.org" # the base hostname & protocol for your site
15+
google_analytics: UA-1326640-1
16+
social:
17+
#twitter: https://twitter.com/<username>
18+
github: https://github.com/biojava
19+
#linkedin-square: https://linkedin.com/in/<username>
20+
#facebook-official: https://facebook.com/<username>
21+
#google-plus-square: https://plus.google.com/u/0/+<username>
22+
#email: /contact/
23+
#flickr:
24+
#instagram:
25+
#youtube-square:
26+
#spotify:
27+
#stack-overflow:
28+
#vimeo:
29+
#reddit:
30+
#stubleupon:
31+
#delicious:
32+
#pied-piper:
33+
#digg:
34+
#soundcloud:
35+
#deviantart:
36+
#angellist:
37+
#tumblr-square:
38+
#stackexchange:
39+
#weibo:
40+
#trello:
41+
#foursquare:
42+
#linux:
43+
#bitbucket-square:
44+
#vk:
45+
#slack:
46+
#vine:
47+
#weixin:
48+
#yelp:
49+
#skyatlas:
50+
#leanpub:
51+
#connectdevelop:
52+
#ils:
53+
#forumbee:
54+
#tripadvisor:
55+
#amazon:
56+
57+
# Build settings
58+
markdown: kramdown
59+
#sass:
60+
# style: compressed
61+
62+
# Release settings
63+
release:
64+
version: 4.2.0
65+
66+
collections:
67+
wikis :
68+
output: true
69+
permalink: /wikis/:path/
70+
post_dirs: false
71+
layout: page
72+
73+
defaults:
74+
-
75+
scope:
76+
path: "" # empty string for all files
77+
values:
78+
layout: page

‎_includes/citation.md‎

Lines changed: 4 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,4 @@
1+
**BioJava: an open-source framework for bioinformatics in 2012**<br/>
2+
*Andreas Prlic; Andrew Yates; Spencer E. Bliven; Peter W. Rose; Julius Jacobsen; Peter V. Troshin; Mark Chapman; Jianjiong Gao; Chuan Hock Koh; Sylvain Foisy; Richard Holland; Gediminas Rimsa; Michael L. Heuer; H. Brandstatter-Muller; Philip E. Bourne; Scooter Willis* <br/>
3+
[Bioinformatics (2012) 28 (20): 2693-2695.](http://bioinformatics.oxfordjournals.org/content/28/20/2693.abstract) <br/>
4+
[![doi](http://img.shields.io/badge/doi-10.1093%2Fbioinformatics%2Fbts494-blue.svg?style=flat)](http://bioinformatics.oxfordjournals.org/content/28/20/2693.abstract) [![pubmed](http://img.shields.io/badge/pubmed-22877863-blue.svg?style=flat)](http://www.ncbi.nlm.nih.gov/pubmed/22877863)

‎_includes/footer.html‎

Lines changed: 27 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,27 @@
1+
<!-- Footer -->
2+
<footer id="footer">
3+
<ul class="icons">
4+
{% for socloc in site.social %}
5+
{% if socloc[1] %}
6+
{% if socloc[0] == 'email' %}
7+
<li><a target="_blank" href="{{ socloc[1] }}" class="icon fa-envelope-o"
8+
><span class="label">E-mail</span></a></li>
9+
{% else %}
10+
<li><a target="_blank" href="{{ socloc[1] }}" class="icon fa-{{ socloc[0] }}"
11+
><span class="label">{{ socloc[0] }}</span></a></li>
12+
{% endif %}
13+
{% endif %}
14+
{% endfor %}
15+
</ul>
16+
<ul class="copyright">
17+
<li>&copy; {% assign thisyear = site.time | date: "%Y" %}
18+
{% if site.first_published %}
19+
{% capture diff %}{{ site.first_published | minus:thisyear }}{% endcapture %}
20+
{% if diff contains '-' %}{{ site.first_published }},{% endif %}
21+
{% endif %}
22+
{{ thisyear }}
23+
{% if site.owner %}{{ site.owner }}{% else %}{{ site.title }}{% endif %}</li>
24+
<li>Design: <a href="http://html5up.net" target="_blank">HTML5 UP</a></li>
25+
<li>Built with: <a href="http://jekyllrb.com" target="_blank">Jekyll</a></li>
26+
</ul>
27+
</footer>

‎_includes/head.html‎

Lines changed: 12 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,12 @@
1+
<head>
2+
<meta charset="utf-8" />
3+
<meta name="viewport" content="width=device-width, initial-scale=1" />
4+
<title>{% if page.title %}{{ page.title | escape }}{% else %}{{ site.title | escape }}{% endif %}</title>
5+
<meta name="description" content="{% if page.excerpt %}{{ page.excerpt | strip_html | strip_newlines | truncate: 160 }}{% else %}{{ site.description }}{% endif %}">
6+
<!--[if lte IE 8]><script src="{{ "/js/ie/html5shiv.js" | prepend: site.baseurl }}"></script><![endif]-->
7+
<link rel="canonical" href="{{ page.url | replace:'index.html','' | prepend: site.baseurl | prepend: site.url }}">
8+
<link rel="stylesheet" href="{{ "/css/main.css" | prepend: site.baseurl }}" />
9+
<!--[if lte IE 8]><link rel="stylesheet" href="{{ "/css/ie8.css" | prepend: site.baseurl }}" /><![endif]-->
10+
<!--[if lte IE 9]><link rel="stylesheet" href="{{ "/css/ie9.css" | prepend: site.baseurl }}" /><![endif]-->
11+
<link rel="alternate" type="application/rss+xml" title="{{ site.title }}" href="{{ "/feed.xml" | prepend: site.baseurl | prepend: site.url }}">
12+
</head>

‎_includes/header.html‎

Lines changed: 25 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,25 @@
1+
<!-- Header -->
2+
<header id="header"{% if page.layout == 'landing' %} class="alt"{% endif %}>
3+
<h1><a href="{{ site.baseurl }}/index.html">{{ site.title }}</a></h1>
4+
<nav id="nav">
5+
<ul>
6+
<li class="special">
7+
<a href="#menu" class="menuToggle"><span>Menu</span></a>
8+
<div id="menu">
9+
<ul>
10+
<li><a href="index.html">Home</a></li>
11+
{% for my_page in site.pages %}
12+
{% if my_page.title %}
13+
<li>{{ my_page.categories | join ' ' }}<a href="{{ my_page.url | prepend: site.baseurl }}">{{ my_page.title }}</a></li>
14+
{% endif %}
15+
{% endfor %}
16+
17+
<li><a href="https://github.com/login">Log In</a></li>
18+
<li><a href="{{ "/feed.xml" | prepend: site.baseurl }}"
19+
class="icon fa-feed"> RSS Feed</a></li>
20+
</ul>
21+
</div>
22+
</li>
23+
</ul>
24+
</nav>
25+
</header>

‎_includes/scripts.html‎

Lines changed: 8 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,8 @@
1+
<!-- Scripts -->
2+
<script src="{{ site.baseurl }}/js/jquery.min.js"></script>
3+
<script src="{{ site.baseurl }}/js/jquery.scrollex.min.js"></script>
4+
<script src="{{ site.baseurl }}/js/jquery.scrolly.min.js"></script>
5+
<script src="{{ site.baseurl }}/js/skel.min.js"></script>
6+
<script src="{{ site.baseurl }}/js/util.js"></script>
7+
<!--[if lte IE 8]><script src="{{ site.baseurl }}/js/ie/respond.min.js"></script><![endif]-->
8+
<script src="{{ site.baseurl }}/js/main.js"></script>

‎_layouts/#default.html#‎

Lines changed: 29 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,29 @@
1+
<!DOCTYPE html>
2+
<!--
3+
Original Design: Spectral by HTML5 UP
4+
html5up.net | @n33co
5+
Free for personal and commercial use under the CCA 3.0 license (html5up.net/license)
6+
Jekyll build mod
7+
-->
8+
<html>
9+
10+
{% include head.html %}
11+
12+
<body>
13+
14+
<!-- Page Wrapper -->
15+
<div id="page-wrapper">
16+
17+
{% include header.html %}
18+
19+
{{ content }}
20+
21+
{% include footer.html %}
22+
23+
{% include scripts.html %}
24+
25+
</div>
26+
27+
</body>
28+
29+
</html>

‎_layouts/default.html‎

Lines changed: 29 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,29 @@
1+
<!DOCTYPE html>
2+
<!--
3+
Original Design: Spectral by HTML5 UP
4+
html5up.net | @n33co
5+
Free for personal and commercial use under the CCA 3.0 license (html5up.net/license)
6+
Jekyll build mod
7+
-->
8+
<html>
9+
10+
{% include head.html %}
11+
12+
<body>
13+
14+
<!-- Page Wrapper -->
15+
<div id="page-wrapper">
16+
17+
{% include header.html %}
18+
19+
{{ content }}
20+
21+
{% include footer.html %}
22+
23+
{% include scripts.html %}
24+
25+
</div>
26+
27+
</body>
28+
29+
</html>

0 commit comments

Comments
 (0)
X Tutup